# Database of segmentations and surface models of bones of the entire lower body created from cadaver CT scans

**URL:** <https://discourse.slicer.org/t/database-of-segmentations-and-surface-models-of-bones-of-the-entire-lower-body-created-from-cadaver-ct-scans/32736>\
**Category:** OpenAnatomy\
**Tags:** data-sets\
**Created:** [November 11, 2023, 9:36am UTC](https://discourse.slicer.org/t/database-of-segmentations-and-surface-models-of-bones-of-the-entire-lower-body-created-from-cadaver-ct-scans/32736 "2023-11-11T09:36:02Z")\
**Posts on this page:** 4\
**Page:** 1

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**Author:** ![MCM-Fischer](https://sea2.discourse-cdn.com/flex002/user_avatar/discourse.slicer.org/mcm-fischer/32/17190_2.png) [@MCM-Fischer](https://discourse.slicer.org/u/MCM-Fischer)\
**Post date:** [November 11, 2023, 9:36am UTC](https://discourse.slicer.org/t/database-of-segmentations-and-surface-models-of-bones-of-the-entire-lower-body-created-from-cadaver-ct-scans/32736/1 "2023-11-11T09:36:02Z")

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Hello everybody

I’ve published a database of full lower body bone models. The segmentations were performed with 3D Slicer. More information can be found in:

> Fischer, M.C.M. Database of segmentations and surface models of bones of the entire lower body created from cadaver CT scans. _Sci Data_ **10** , 763 (2023). [https://doi.org/10.1038/s41597-023-02669-z](https://doi.org/10.1038/s41597-023-02669-z)

See also:

> **[GitHub - MCM-Fischer/VSDFullBodyBoneModels: Surface models of bones created...](https://github.com/MCM-Fischer/VSDFullBodyBoneModels)**
>
> Surface models of bones created from CT datasets of the open source VSDFullBody database. - GitHub - MCM-Fischer/VSDFullBodyBoneModels: Surface models of bones created from CT datasets of the open ...

[![](https://user-images.githubusercontent.com/43516130/265526827-b1e706f4-8b43-42d6-b249-1633aaa28381.JPG) ](https://user-images.githubusercontent.com/43516130/265526827-b1e706f4-8b43-42d6-b249-1633aaa28381.JPG)

Kind regards

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**Author:** ![lassoan](https://sea2.discourse-cdn.com/flex002/user_avatar/discourse.slicer.org/lassoan/32/13_2.png) [@lassoan](https://discourse.slicer.org/u/lassoan)\
**Post date:** [November 13, 2023, 6:32am UTC](https://discourse.slicer.org/t/database-of-segmentations-and-surface-models-of-bones-of-the-entire-lower-body-created-from-cadaver-ct-scans/32736/2 "2023-11-13T06:32:28Z")

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Thanks for sharing!

For my curiousity, I’ve tried fully automatic segmentation of these CTs using [TotalSegmentator extension](https://github.com/lassoan/SlicerTotalSegmentator). In a few minutes, it provided results that looked similar to yours, except that yours have a few segments divided into smaller regions.

 ![image](https://us1.discourse-cdn.com/flex002/uploads/slicer/original/3X/5/c/5cdac2522fadbf8b405314ed6acac0c02f01352e.jpeg)

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**Author:** ![MCM-Fischer](https://sea2.discourse-cdn.com/flex002/user_avatar/discourse.slicer.org/mcm-fischer/32/17190_2.png) [@MCM-Fischer](https://discourse.slicer.org/u/MCM-Fischer)\
**Post date:** [February 9, 2024, 5:23pm UTC](https://discourse.slicer.org/t/database-of-segmentations-and-surface-models-of-bones-of-the-entire-lower-body-created-from-cadaver-ct-scans/32736/3 "2024-02-09T17:23:09Z")

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Hi Andras

That’s awesome! This was actually part of the idea of the publication to provide some test (and additional training) data for AI segmentation models.

I had to buy a new computer first to test TotalSegmentator (ThinkPad P1 i9 RTX 3080 Ti 16 GB VRAM 64 GB RAM).  
I’ve tried it with the volume SMIR.Lower\_limb.051Y.F.CT.168.nrrd from this data set [https://zenodo.org/records/8302449/files/006.zip?download=1](https://zenodo.org/records/8302449/files/006.zip?download=1)

However, TotalSegmentator only segmented the volume down to the knees. The bones of the shanks and feet are missing.  
Do you maybe have an idea what could be the reason?

 ![grafik](https://us1.discourse-cdn.com/flex002/uploads/slicer/original/3X/a/9/a9b9ad26040ba83a06e6a2b87fc97584cd5f9efc.png)

Kind regards

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<div class="post-metadata">

**Author:** ![lassoan](https://sea2.discourse-cdn.com/flex002/user_avatar/discourse.slicer.org/lassoan/32/13_2.png) [@lassoan](https://discourse.slicer.org/u/lassoan)\
**Post date:** [February 10, 2024, 6:40pm UTC](https://discourse.slicer.org/t/database-of-segmentations-and-surface-models-of-bones-of-the-entire-lower-body-created-from-cadaver-ct-scans/32736/4 "2024-02-10T18:40:43Z")

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For lower leg segmentation you need to get an academic or commercial license from [here](https://github.com/wasserth/TotalSegmentator?tab=readme-ov-file#subtasks).